RNA-Seq of sus scrofa:fullfed 8-weeks old male ileum
Total RNA was extracted from the duodenum, jejunum and ileum with standard protocols previously described (Garas et al., 2018). The resulting total RNA was analyzed for integrity using the Agilent 2100 Bioanalyzer system (Agilent Technologies) and samples with integrity number greater than 7 used for library construction (input of 2g of total RNA) with the KAPA Stranded mRNA-Seq kit (KAPA Biosystems) and Agencourt AMPure reagent (Beckman Coulter) with adapters compatible with the Illumina platform (Integrated DNA Technologies - Supplementary Data, Table 1). Samples were randomly pooled at a concentration of 5nM for 100 bp single-end sequencing across multiple lanes using the HiSeq 3000 System (Illumina) at the UC Davis Genome Center DNA Technologies Core.